BioPred：精准医学中用于生物标志物分析的 R 包。

BioPred: an R package for biomarkers analysis in precision medicine.

机构信息

Data and Statistical Sciences, AbbVie Inc., North Chicago, IL, 60064, United States.

出版信息

Bioinformatics. 2024 Oct 1;40(10). doi: 10.1093/bioinformatics/btae592.

DOI:10.1093/bioinformatics/btae592

PMID:39374538

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11483108/

Abstract

SUMMARY

The R package BioPred offers a suite of tools for subgroup and biomarker analysis in precision medicine. Leveraging Extreme Gradient Boosting (XGBoost) along with propensity score weighting and A-learning methods, BioPred facilitates the optimization of individualized treatment rules to streamline subgroup identification. BioPred also enables the identification of predictive biomarkers and obtaining their importance rankings. Moreover, the package provides graphical plots tailored for biomarker analysis. This tool enables clinical researchers seeking to enhance their understanding of biomarkers and patient population in drug development.

AVAILABILITY AND IMPLEMENTATION

The package is available at CRAN and https://github.com/deeplearner0731/BioPred.

摘要

R 包 BioPred 为精准医学中的亚组和生物标志物分析提供了一套工具。该工具利用极端梯度提升（XGBoost）以及倾向得分加权和 A-学习方法，优化了个体化治疗规则以简化亚组识别。BioPred 还能够识别预测生物标志物并获得其重要性排名。此外，该包还提供了专门用于生物标志物分析的图形图。该工具可供药物开发中希望深入了解生物标志物和患者群体的临床研究人员使用。